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Bioinformatics Advance Access originally published online on January 22, 2004
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Bioinformatics 20(4) © Oxford University Press 2004; all rights reserved.

Applications Note

AntiHunter: searching BLAST output for EST antisense transcripts

Giovanni Lavorgna 1,*, Luca Sessa 1,2, Alessandro Guffanti 3, Lelio Lassandro 3 and Giorgio Casari 1

1 Istituto Scientifico H. S. Raffaele, Via Olgettina 60, 20132 Milan, Italy, 2 Dulbecco Telethon Institute IGB CNR Via Pietro Castellino 111, 80131 Naples, Italy and 3 IFOM-FIRC Institute of Molecular Oncology, Via Adamello 16, 20139 Milan, Italy

Received on August 22, 2003 ; accepted on October 6, 2003
Advance Access Publication January 22, 2004

Summary: AntiHunter is a new web-based tool for the identification of expressed sequence tag (EST) antisense transcripts from BLAST output. In order to perform an analysis, user is required to input a genomic sequence plus an associated list of transcript names and coordinates of the genomic region (i.e. genome annotation). After masking the repeated regions (if any), program will perform a BLASTN search of the input sequence versus the selected EST database, reporting by Email the EST entries that reveal a putative antisense transcript with respect to the user supplied list.

Availability: AntiHunter is currently available through a web interface at http://bio.ifom-firc.it/ANTIHUNTER/.

Contact: giovanni.lavorgna{at}hsr.it

* To whom correspondence should be addressed.


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